FIMS Weekly - August 04–08, 2025

BIG THINGS HAPPENING

The case studies will be updated this week to use the latest release. This has been done in dev for a while but just hanging in the ether.
We will be migrating several resources from individual repositories to the FIMS website, e.g., FIMS Weekly newsletter, training repo, doxygen documentation, and potentially the collaborative workflow.
Please ensure that your affiliation in the FIMS manuscript is correct, which will be submitted to ICES Journal of Marine Science at the beginning of next week.

ANNOUNCEMENTS

FIMS website is now newly updated thanks to Elizabeth 🥇!
The CIE Review has been approved and will be held November 04–06, 2025 using an online platform.

Tuesday, August 05

FIMS Code Club (json) Time: 13:00–16:00 E; 10:00–13:00 P; 9:00–12:00 AK; 7:00–10:00 H Location: Virtual Online: Google Meet

Wednesday, August 06

FIMS Implementation Team Meeting (Projections)

Time: 15:30–16:30 E; 12:30–13:30 P; 11:30–12:30 AK; 9:30–10:30 H Location: Virtual Online: Google meet

Photo of the week

During last week’s Seaside Chat, it was proposed that we should make a json schema for the FIMS output and I agree 💯. Gemini then told me that referencing schemas is a thing, which led me down a “bright” 🐰🕳️. I realized that the .bib files for LaTeX that I normally work with are essentially a json file. Gemini also informed me that BioSchemas is the most referenced schema in science, particularly their Dataset schema. Below is an example:

{
  "@context": "https://schema.org/",
  "@type": "Dataset",
  "name": "Human Genome Assembly GRCh38",
  "description": "The latest full reference genome assembly of the human genome, a product of the Genome Reference Consortium.",
  "url": "https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.26/",
  "identifier": "GCF_000001405.26",
  "creator": {
    "@type": "Organization",
    "name": "Genome Reference Consortium"
  },
  "citation": "Kallberg, M. et al. (2014). GRCh38: The human reference genome update. Nucleic Acids Research.",
  "keywords": [
    "Human Genome",
    "GRCh38",
    "Genomics",
    "Reference Assembly"
  ],
  "license": "https://creativecommons.org/licenses/by/4.0/",
  "datePublished": "2013-12-17",
  "distribution": [
    {
      "@type": "DataDownload",
      "name": "GRCh38 FASTA file",
      "contentUrl": "ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/405/GCF_000001405.26_GRCh38/GCF_000001405.26_GRCh38_genomic.fna.gz",
      "encodingFormat": "application/x-fasta"
    }
  ],
  "measurementTechnique": "Next-Generation Sequencing",
  "inLanguage": "en"
}